FlyPhy: A Phylogenomic Analysis Platform for Fly Genes and Protein Families. PHAST and RPHAST: phylogenetic analysis with space/time models. Migrate-n. DnaSP Software. J.
Rozas, P. Librado, J. C. Sánchez-DelBarrio, X. Messeguer and R. DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of nucleotide polymorphism from aligned DNA sequence data. More information DnaSP User-Interface Running DnaSP under Windows, Linux and MacIntosh Bugs detected in DnaSP New features in DnaSP versions 5.10 DnaSP version 5.10.1 (Self-extracting file of 4.6 Mb) Download DnaSP DnaSP Documentation Having trouble downloading/running DnaSP? Molecular Evolutionary Genetics Group Web VariScan Software References: LAMARC - estimating population parameters. Readseq. Structure. The program structure is a free software package for using multi-locus genotype data to investigate population structure.
Its uses include inferring the presence of distinct populations, assigning individuals to populations, studying hybrid zones, identifying migrants and admixed individuals, and estimating population allele frequencies in situations where many individuals are migrants or admixed. It can be applied to most of the commonly-used genetic markers, including SNPS, microsatellites, RFLPs and AFLPs.
Download Structure 2.3.4 . What to cite: The basic algorithm was described by Pritchard, Stephens & Donnelly (2000) . Extensions to the method were published by Falush, Stephens and Pritchard (2003) and (2007) and by Hubisz, Falush, Stephens and Pritchard (2009) . Contributors: Daniel Falush , Melissa Hubisz , Matthew Stephens , Jonathan Pritchard , Peter Donnelly , William Wen , Mike Trienis , Pall Melsted .
Sample data sets: available here . The Phylogenetic Handbook. HyPhy. Arlequin 3.5 - Home. News 03.02.2013 Release of new R functions for R package ver 3.01 here.
The zip file contains a directory called Rfunctions, which needs to replace the Rfunctions directory located in your Arlequin home directory. If you have already installed Arlequin and update your R package to ver 3.01 (latest version in June 2013), then this update is necessary to be able to produce graphics in your xml files. 19.09.2011 Release of maintenance version of arlequin ver 3.5.1.3, correcting minor bugs. New versions of arlcore and arlsumstat ver 3.5.1.3 for Mac OS X are available on the download page. 11.10.2010 Kent Holsinger has kindly developed a MacOSX binary version of Winarl35 under WineBottler, which needs to be installed on your Mac. More information and a downloadable version of WinArl35.dmg can be found here. 24.02.2010 There was a minor bug in the first release of Arlequin version 3.5. Why is it called Arlequin? Arlequin phylosophy Implemented methods System requirements Installation Configuration.